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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Interaction pattern similarity measured by Grim
You can zoom onto the graph by using the mouse to make a selection

Binding Modes are compared using Grim.
For more information, please see the following publication: Desaphy J. et al. Encoding Protein-Ligand Interaction Patterns in Fingerprints and Graphs J. Chem. Inf. Model., 2013, 53 (3), pp 623-637
Binding modes are considered as similar when the similarity value is greater than 0.65


Reference Protein Data Bank Entry :
PDB ID HET Uniprot Name EC Number
1fjx SAH Modification methylase HhaI 2.1.1.37

Complex with similar interaction patterns:

PDB ID HET Uniprot Name EC Number Binding Mode
Similarity		 Align
1fjx SAHModification methylase HhaI 2.1.1.37 0.924
2c7q SAHModification methylase HhaI 2.1.1.37 0.864
3mht SAHModification methylase HhaI 2.1.1.37 0.861
1skm SAHModification methylase HhaI 2.1.1.37 0.851
2i9k SAHModification methylase HhaI 2.1.1.37 0.845
2z6u SAHModification methylase HhaI 2.1.1.37 0.844
2uyh SAHModification methylase HhaI 2.1.1.37 0.831
4mht SAHModification methylase HhaI 2.1.1.37 0.827
2zcj SAHModification methylase HhaI 2.1.1.37 0.820
1mht SAHModification methylase HhaI 2.1.1.37 0.793
10mh SAHModification methylase HhaI 2.1.1.37 0.784
7mht SAHModification methylase HhaI 2.1.1.37 0.784
4dkj SAHCytosine-specific methyltransferase / 0.746
3ldg SAHUncharacterized protein / 0.728
2hmy SAMModification methylase HhaI 2.1.1.37 0.725
3tm4 SAMUncharacterized protein / 0.725
2bh2 SAH23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD / 0.724
3pt6 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.722
2zzm SAMtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.717
5mht SAHModification methylase HhaI 2.1.1.37 0.717
4rtj SFGDNA adenine methylase 2.1.1.72 0.705
5il2 SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.705
3v97 SAHRibosomal RNA large subunit methyltransferase K/L 2.1.1.173 0.693
3qv2 SAH5-cytosine DNA methyltransferase / 0.692
2g1p SAHDNA adenine methylase 2.1.1.72 0.691
1eg2 MTAModification methylase RsrI 2.1.1.72 0.690
4wxx SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.690
5il1 SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.690
5e72 SAMN2, N2-dimethylguanosine tRNA methyltransferase / 0.689
5k7u SAMN6-adenosine-methyltransferase 70 kDa subunit / 0.689
4nec SAHPutative SAM-dependent methyltransferase / 0.688
4poo SAMPutative RNA methylase / 0.687
2yxl SFG450aa long hypothetical fmu protein / 0.686
3pt9 SAHDNA (cytosine-5)-methyltransferase 1 2.1.1.37 0.686
1wg8 SAMRibosomal RNA small subunit methyltransferase H / 0.685
4fp9 SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.685
5k7w SAHN6-adenosine-methyltransferase 70 kDa subunit / 0.685
9mht SAHModification methylase HhaI 2.1.1.37 0.684
3tos SAHCalS11 / 0.683
1nw5 SAMModification methylase RsrI 2.1.1.72 0.682
3ou2 SAHSAM-dependent methyltransferase / 0.682
3go4 SAHUncharacterized protein / 0.681
3ldf SAHUncharacterized protein / 0.681
3ou6 SAMSAM-dependent methyltransferase / 0.677
1yf3 SAHDNA adenine methylase / 0.673
4dcm SAMRibosomal RNA large subunit methyltransferase G 2.1.1.174 0.673
2ore SAHDNA adenine methylase 2.1.1.72 0.671
2hmv ADPKtr system potassium uptake protein A / 0.670
4fgz SAHPhosphoethanolamine N-methyltransferase / 0.669
4mb2 ATPUncharacterized protein / 0.669
2px5 SAHGenome polyprotein 2.7.7.48 0.668
4gbe SAHDNA adenine methylase 2.1.1.72 0.668
1nw6 SFGModification methylase RsrI 2.1.1.72 0.667
2a14 SAHIndolethylamine N-methyltransferase 2.1.1.49 0.667
4fzv SAM5-methylcytosine rRNA methyltransferase NSUN4 2.1.1 0.667
1qan SAHrRNA adenine N-6-methyltransferase 2.1.1.184 0.666
3q87 SAMN6 ADENINE SPECIFIC DNA METHYLASE (METHYLTRANSFERASE SUPERFAMILY) / 0.665
2yqz SAMUncharacterized protein / 0.663
3b5i SAHIndole-3-acetate O-methyltransferase 1 / 0.663
2px2 SAHGenome polyprotein 2.7.7.48 0.662
2yx1 SFGtRNA (guanine(37)-N1)-methyltransferase Trm5b 2.1.1.228 0.662
4h0n SAHDnmt2 / 0.662
4rtk SAHDNA adenine methylase 2.1.1.72 0.662
5ccb SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.662
5e9w SAHmRNA cap guanine-N7 methyltransferase 2.1.1.56 0.662
3eey SAMrRNA methylase / 0.661
3a26 MTAtRNA(Phe) (4-demethylwyosine(37)-C(7)) aminocarboxypropyltransferase / 0.660
4r6x SAHPhosphoethanolamine N-methyltransferase / 0.660
3tm5 SFGUncharacterized protein / 0.658
5ccx SAHtRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A 2.1.1.220 0.658
3lby SAHUncharacterized protein / 0.656
3axs SFGtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.655
3axt SAMtRNA (guanine(26)-N(2)/guanine(27)-N(2))-dimethyltransferase / 0.654
3evc SAHGenome polyprotein 2.1.1.56 0.654
5je4 SAHMethyl transferase / 0.653
2f8l SAMLmo1582 protein / 0.652
2zif SAMMethyltransferase / 0.652
4qdk SAHMagnesium-protoporphyrin O-methyltransferase 2.1.1.11 0.651